Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AFF4

Cell type

Cell type Class
Blood
Cell type
MV-4-11
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
MV411 cells
chip antibody
AFF4 antibody
treatment
DMSO control
cell line
MV411

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq sample libraries were prepared using the NEBNext® Ultra™ II DNA Library Prep Kit (NEB, #E7645L) following the manufacturer's instructions. After adapter ligation, DNA was PCR amplified with Illumina primers for indicated cycles and the DNA size distribution was quantified on an Agilent Bioanalyzer DNA chip ( Agilent, #5067-1504). Then samples were sequenced using Illumina NextSeq 500.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
35395023
Reads aligned (%)
95.3
Duplicates removed (%)
16.1
Number of peaks
9500 (qval < 1E-05)

hg19

Number of total reads
35395023
Reads aligned (%)
94.8
Duplicates removed (%)
17.1
Number of peaks
9519 (qval < 1E-05)

Base call quality data from DBCLS SRA